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The ENCODE Project at UC Santa Cruz.

Daryl J Thomas1, Kate R Rosenbloom, Hiram Clawson

  • 1Department of Biomolecular Engineering, University of California at Santa Cruz, Santa Cruz, CA 95064, USA. daryl@soe.ucsc.edu

Nucleic Acids Research
|December 15, 2006
PubMed
Summary
This summary is machine-generated.

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The Encyclopedia Of DNA Elements (ENCODE) Project identifies functional human genome elements. This pilot phase compares methods and analyzes 1% of the genome, providing data access and analysis tools.

Area of Science:

  • Genomics
  • Molecular Biology
  • Bioinformatics

Background:

  • The human genome contains numerous functional elements crucial for biological processes.
  • Identifying these elements is essential for understanding gene regulation and disease.
  • Existing methods for genome analysis required rigorous comparison and development.

Purpose of the Study:

  • To identify functional elements within the human genome.
  • To compare and develop new methods for rigorous genomic analysis.
  • To provide a centralized portal for accessing and analyzing ENCODE pilot phase data.

Main Methods:

  • Analysis of a defined 1% of the human genome sequence.
  • Generation of experimental datasets including DNase I hypersensitivity, chromatin immunoprecipitation, and RNA sequencing.

Related Experiment Videos

  • Development of a web portal for data visualization, analysis, and download.

    • Main Results:

    • Over 30 labs contributed experimental results, creating 56 browser tracks and 385 database tables.
    • The ENCODE project website serves as a primary portal for sequence-based data.
    • Researchers can visualize, analyze, and download genomic data for further studies.

    Conclusions:

    • The ENCODE pilot phase successfully established a framework for large-scale functional genomics research.
    • The developed data portal and analysis tools facilitate widespread access and utilization of genomic data.
    • This initiative lays the groundwork for comprehensive functional element identification across the entire human genome.